Type Parameters:: S - each element of the alignment Profile is of type S; C - each element of an AlignedSequence is a Compound of type C

All Superinterfaces:: Iterable<AlignedSequence<S,C>>, MutableProfile<S,C>, Profile<S,C>, ProfilePair<S,C>

public interface MutableProfilePair<S extends Sequence<C>,C extends Compound> extends MutableProfile<S,C>, ProfilePair<S,C>

Defines a mutable (editable) data structure for a ProfilePair.

Nested Class Summary

Nested classes/interfaces inherited from interface org.biojava.nbio.core.alignment.template.Profile
Profile.StringFormat
Method Summary

Modifier and Type

Method

Description

void

setPair(Profile<S,C> query, Profile<S,C> target)

Sets both Profiles of the pair.

void

setQuery(Profile<S,C> query)

Sets the first Profile of the pair.

void

setTarget(Profile<S,C> target)

Sets the second Profile of the pair.

Methods inherited from interface java.lang.Iterable
forEach, iterator, spliterator

Methods inherited from interface org.biojava.nbio.core.alignment.template.MutableProfile
setSequences

Methods inherited from interface org.biojava.nbio.core.alignment.template.Profile
getAlignedSequence, getAlignedSequence, getAlignedSequences, getAlignedSequences, getAlignedSequences, getCompoundAt, getCompoundAt, getCompoundCountsAt, getCompoundCountsAt, getCompoundsAt, getCompoundSet, getCompoundWeightsAt, getCompoundWeightsAt, getIndexOf, getIndicesAt, getLastIndexOf, getLength, getOriginalSequences, getSize, getSubProfile, hasGap, isCircular, toString, toString, toString

Methods inherited from interface org.biojava.nbio.core.alignment.template.ProfilePair
getQuery, getTarget

Interface MutableProfilePair<S extends Sequence<C>,C extends Compound>

Nested Class Summary